ktest_data_genome_biology_2024

This repository contains the reversion dataset and the scChIP-Seq dataset analysed in Ozier-Lafontaine et. al 2024. 

Files associated to reversion dataset : 

reversion_SCT_residuals.csv : Pearson residuals of the scRNAseq dataset based on the R package sctransform  

reversion_SCT_residuals_batch_corrected.csv : Batch-centered Pearson residuals of the scRNAseq dataset based on the R package sctransform  

RTqPCR_reversion_logx.csv : log(X+1) normalization of the RTqPCR dataset 

RTqPCR_reversion_logcentered.csv Batch-centered log(X+1) normalization of the RTqPCR dataset 

Files associated to the scChIP-Seq dataset : 

human_epdnew_qoQwV.bed 

MM468_H3K27me3_peaks_3000_10000_95_uncorrected_correlation_filtered.qs 

The scripts to perform the data analysis are on the github repository https://github.com/AnthoOzier/ktest_experiment_genome_biology_2024   

The reversion dataset comes from Zreika, S., Fourneaux, C., Vallin, E. et al. Evidence for close molecular proximity between reverting and undifferentiated cells. BMC Biol 20, 155 (2022). https://doi.org/10.1186/s12915-022-01363-7